genome.fa.s9634.2.7.7.80.10.50.1000.6.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  6  of  78  ( 9351 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201767--1201861	20	4.8	20	86	2	111	37	22	18	21	1.94
1201857--1201893	19	1.9	19	100	0	74	48	29	16	5	1.68
1202015--1202062	20	2.4	20	82	0	60	20	18	25	35	1.95
1204030--1204106	20	3.8	20	92	1	109	50	20	16	11	1.76
1204030--1204091	21	3.0	21	92	4	108	54	19	16	9	1.68
1204054--1204159	20	5.7	19	74	13	78	38	23	20	16	1.93
1204496--1204571	22	3.5	22	76	7	73	23	17	36	22	1.94
1204734--1204830	20	4.8	20	83	7	133	23	21	27	26	1.99
1204734--1204860	61	2.1	61	88	2	184	22	20	27	29	1.99
1204849--1204901	20	2.7	20	90	0	79	24	20	15	39	1.91
1204987--1205023	19	1.9	19	88	0	56	24	16	27	32	1.96
1223193--1223321	63	2.1	60	83	9	154	41	6	7	44	1.58
1229142--1229181	15	2.7	16	74	22	50	52	7	0	40	1.30
1229750--1229790	16	2.6	16	92	3	66	36	4	21	36	1.75
1232002--1232216	106	2.0	107	90	1	342	39	19	10	30	1.85
1234685--1234743	25	2.4	25	97	0	109	47	18	11	22	1.81
1245660--1245704	20	2.3	20	84	3	56	51	8	4	35	1.54
1245663--1245702	20	2.0	20	90	0	62	47	10	5	37	1.59
1245716--1245755	20	2.0	21	90	5	64	45	15	5	35	1.68
1245769--1245807	20	2.0	20	89	0	60	41	15	5	38	1.69
1245661--1245808	53	2.8	51	93	3	251	48	12	5	33	1.63
1250348--1250387	20	2.0	20	95	0	71	45	12	5	37	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250401--1250440	20	2.0	21	90	5	64	45	15	5	35	1.68
1250454--1250491	19	1.9	19	94	5	67	42	15	5	36	1.70
1250344--1250492	53	2.9	52	95	4	266	48	12	6	32	1.66
1260611--1260635	12	2.1	12	100	0	50	40	8	8	44	1.63
1262417--1262461	19	2.3	19	84	3	54	68	13	0	17	1.20
1268953--1268989	19	2.1	18	90	10	58	45	5	10	37	1.62
1268991--1269017	13	2.1	13	100	0	54	48	14	0	37	1.45
1277209--1277267	31	1.9	31	85	0	82	23	3	32	40	1.71
1277455--1277494	20	2.0	20	85	0	53	35	7	22	35	1.82
1282664--1282794	59	2.2	59	89	2	192	33	21	17	27	1.96
1283362--1283401	12	3.3	12	85	0	62	50	0	10	40	1.36
1284063--1284101	20	2.0	20	84	0	51	64	5	0	30	1.15
1291144--1291177	18	1.9	17	94	5	59	35	2	0	61	1.11
1292222--1292310	28	3.1	28	80	11	74	48	8	10	32	1.68
1293291--1293329	14	2.7	15	88	4	53	71	0	0	28	0.86
1294148--1294367	84	2.6	84	79	2	273	24	19	24	31	1.98
1294557--1294615	30	2.0	30	83	12	77	33	11	15	38	1.84
1294601--1294684	37	2.3	36	79	6	89	39	15	20	25	1.91
1294578--1294951	102	3.7	102	83	2	412	39	12	18	30	1.87
1294855--1294983	65	2.0	65	81	3	152	38	11	17	31	1.86
1297383--1297571	99	1.9	99	94	0	333	28	12	22	35	1.91
1297599--1297666	23	3.0	23	85	8	84	20	25	26	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1302666--1302878	103	2.1	103	93	0	363	27	13	23	36	1.92
1302894--1302962	23	3.0	23	70	8	59	23	26	21	28	1.99
1303756--1304420	36	19.0	36	73	12	467	39	12	20	27	1.88
1303792--1304054	138	1.9	139	87	2	386	40	12	19	26	1.88
1303665--1304333	174	3.8	174	92	1	1088	40	12	20	26	1.88
1303966--1304218	138	1.8	138	86	1	364	39	13	19	27	1.88
1304249--1304362	29	3.6	29	73	24	113	36	10	19	33	1.86
1304279--1304420	39	3.9	39	75	20	171	38	11	20	29	1.87
1304250--1304401	68	2.2	68	100	0	304	37	10	19	32	1.86
1305260--1305353	32	2.9	32	88	3	136	36	20	12	30	1.90
1305255--1305359	32	3.3	31	84	4	129	36	20	14	28	1.92
1306283--1306412	69	2.0	63	86	11	183	25	14	21	38	1.91
1306451--1306511	25	2.4	26	78	15	65	3	18	1	77	0.99
1306471--1306521	26	2.0	26	88	3	77	0	17	7	74	1.05
1306474--1306512	16	2.4	16	82	4	51	0	17	5	76	0.96
1306473--1306527	26	2.2	25	83	3	65	3	14	7	74	1.17
1308453--1308488	17	2.1	18	89	5	56	75	2	16	5	1.12
1309562--1309624	28	2.4	24	80	15	63	73	3	11	12	1.22
1309654--1309718	21	3.0	21	78	13	60	75	3	7	13	1.14
1309680--1309731	21	2.5	20	84	9	68	69	5	3	21	1.26
1309858--1309886	2	14.5	2	100	0	58	51	0	0	48	1.00
1309806--1309956	16	8.5	18	70	19	70	61	1	3	33	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309874--1309954	34	2.4	33	80	10	92	62	1	2	33	1.16
1325168--1325222	26	2.1	26	83	6	67	34	1	10	52	1.47
1329469--1329515	2	23.5	2	100	0	94	51	0	0	48	1.00
1334349--1334390	20	2.1	20	86	0	57	30	30	7	30	1.84
1334400--1334494	21	4.7	20	72	11	68	28	26	12	32	1.93
1334400--1334504	41	2.5	40	75	6	111	28	26	12	32	1.92
1334538--1334586	20	2.5	20	82	0	62	26	24	14	34	1.94
1334675--1334735	22	2.8	22	92	2	97	27	37	6	27	1.82
1335520--1335573	24	2.2	24	93	0	90	20	18	20	40	1.91
1338273--1338318	20	2.3	20	88	0	65	19	15	23	41	1.89
1339615--1339752	21	6.7	21	79	6	131	26	18	35	19	1.95
1339629--1339746	63	1.9	62	87	1	173	27	17	36	18	1.94
1341804--1341847	19	2.2	20	92	4	72	45	25	18	11	1.82
1341843--1341911	20	3.8	20	72	21	60	14	15	21	47	1.81
1341859--1341892	14	2.4	14	90	0	50	11	17	23	47	1.81
1342410--1342449	19	2.1	19	85	0	53	40	17	20	22	1.92
1349842--1349896	27	2.0	27	82	6	67	54	9	3	32	1.49
1357667--1357767	31	3.3	31	78	9	84	59	0	0	40	0.97
1358480--1358531	15	3.5	15	74	10	61	48	1	7	42	1.43
1358471--1358559	30	3.0	30	86	1	126	44	2	12	40	1.54
1358772--1358830	28	2.1	27	81	9	66	38	0	3	57	1.15
1358966--1359084	26	4.6	25	70	10	80	52	1	0	45	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359324--1359418	42	2.3	42	94	0	163	49	20	15	14	1.79
1360228--1360278	19	2.6	20	90	3	77	43	23	17	15	1.88
1360228--1360545	20	15.6	20	78	7	147	38	18	23	19	1.93
1360353--1360543	40	4.7	40	85	3	256	36	16	25	21	1.94
1360373--1360530	83	1.9	83	88	0	235	35	17	25	22	1.95
1360332--1360545	103	2.1	103	95	0	383	35	17	25	21	1.95
1360536--1360575	20	2.0	20	90	0	62	52	17	17	12	1.74
1360652--1360717	6	11.5	6	98	1	111	30	53	16	0	1.44
1361393--1361447	6	9.5	6	98	2	96	0	16	52	30	1.44
1361555--1361721	20	8.3	20	83	12	182	20	24	16	37	1.93
1361555--1361721	82	2.1	79	85	6	228	20	24	16	37	1.93
1361755--1361806	19	2.6	19	87	6	68	15	19	23	42	1.89
1373267--1373307	18	2.3	18	91	4	66	63	2	4	29	1.28
1375951--1375983	17	1.9	17	100	0	66	66	6	6	21	1.35
1375988--1376040	16	3.5	15	78	14	63	62	3	0	33	1.13
1375989--1376039	14	3.4	14	77	15	57	60	3	0	35	1.15
1375988--1376040	15	3.5	15	79	5	61	62	3	0	33	1.13
1376494--1376523	11	2.7	11	100	0	60	66	0	6	26	1.16
1376487--1376520	11	3.4	10	88	11	52	67	0	5	26	1.13
1377453--1377498	21	2.1	22	88	4	67	50	10	13	26	1.74
1381685--1381709	13	1.9	13	100	0	50	40	16	24	20	1.91
1384626--1384690	28	2.3	30	82	15	84	55	10	0	33	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1384630--1384684	29	2.0	29	86	13	80	54	12	0	32	1.38
1390008--1390039	16	2.0	17	88	11	50	56	0	6	37	1.25
1390354--1390385	2	16.0	2	100	0	64	50	0	0	50	1.00
1396595--1396653	5	11.8	5	77	13	59	6	37	35	20	1.79
1396945--1396999	22	2.5	22	78	0	65	30	9	21	38	1.85
1405206--1405274	36	1.9	36	90	0	111	36	17	4	42	1.69
1405206--1405289	36	2.4	36	85	2	107	38	16	3	41	1.66
1411721--1411794	20	3.7	20	80	3	94	40	18	22	17	1.91
1411738--1411805	21	3.3	21	79	4	93	41	17	25	16	1.89
1411721--1411813	41	2.3	41	98	0	177	39	17	24	18	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78